Sequence
atgc intronic sequence ATGC exonic sequenceTGATATCCATAAGCGTGGGGGTACGATTCTTGGGACATCACGAGGGGGGCATGATACTGGCAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttaccatgtgtcagctgtattataatgaagtttctgatgatgatgaatgcgggaatcataaattagagttttgttatatccatgtacttaaaacctaagtaggttattgtcatcgcatgggttttcattgcttgggttatggttacag
Basic information
species | Glycine max |
transcript | GLYMA06G09320.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G09320.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g44922.1 (Oryza sativa), 5'ss of exon 6
TGATATCCATAAGCGTGGGGGTACGATTCTTGGGACATCACGAGGGGGGCATGATACTGGCAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttac-catgtgtcagctgtattataatgaagtttctgatgatgatgaatgcgggaatcataaattagagttttgttatatccatgtacttaaaacctaagtaggttattgtcatcgcatgggttttcattgcttgggttatggttacag
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TGACATCCACAAGAGGGGTGGGACAGTTCTTGGCACATCACGAGGTGGCCATGATACAAAAAAGATTGTTGACAACATTCAGGATCGTGGAATTAATCAGgtaaatgcggttgtttgcacctatgtgatatagctcttctgattggtcattgtc----tcatgtgcttatgt---acattacccag-----------------------------------------------------------------
upper sequence: GLYMA06G09320.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 5'ss of exon 6
TGATATCCATAAGCGTGGGGGTACGATTCTTGGGACATCACGAGGGGGGCATGATACTGGCAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttaccatgtgtcagctgtattataatgaagtttctgatgatgatgaatgcgggaatcataaattagagttttgttatatccatgtacttaaaacctaagtaggttattgtca-tcgcatgggttttcattgcttgggttatggttacag
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CGACATTCACAAAAGGGGTGGAACTGTTCTTGGGACATCACGTGGAGGCCATGACACCATGAAGATTGTTGACAGCATCCAGGATCGTGGTATAAATCAGgtaaaggaaatggatgccattttattact---tttcagacactgttttatgaatcaatttacagatagtatgaagattcttctacctaactgaaacatcttacattcagcgttggttacaagtttgtgcattgtccag-------------
upper sequence: GLYMA06G09320.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
TGATATCCATAAGCGTGGGGGTACGATTCTTGGGACATCACGAGGGGGGCATGATACTGGCAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttaccatgtgtcagctgtattataatgaagtttctgatgatgatgaatgcgggaatcataaattagagttttgttatatc-catgtacttaaaacctaagtaggttattgtcatcgcatgggttttcattgcttgggttatggttacag
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TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgt-----atgtgcttgctg-atta--gtgtttctttgcataacccttattttggaggt--tgagtaaatgttcttctttaccacatctag-------------------------------------------------------------
upper sequence: GLYMA06G09320.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 5'ss of exon 6
TGATATCCATAAGCGTGGGGGTACGATTCTTGGGACATCACGAGGGGGGCATGATACTGGCAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttaccatgtgtcagctgtattataatgaagtttctgatgatgatgaatgcgggaatcataaattagagttttgttatatccatgtacttaaaacctaagtaggttattgtcatcgcatgggttttcattgcttgggttatg--gttacag
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TGACATCCATAAACGTGGTGGTACTGTCCTTGGCACATCAAGAGGAGGCCATGATACCTCAAAGATAGTTGACAGCATTCAGGATCGTGGGATTAATCAGgtgcctaaaggattaatt-tttcattgtgtt-ccttaaatgatggttattatgatt-tctgaaattggaattctat-gtgcagctgtaact---gccagggcatgcaatttccat-gcatga-tgttgattcattttcttttgatgttccagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|18041257|gb|BM309559.1|BM309559EST: TGATACTGGGCA-GATAGTTGACAGCATCCAGGATCGAGGAATTTATCAG GTTTATATTATT
genomic: TGATACTGG-CAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttaccatg ... atggttacagGTTTATATTATT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATATCCATAAGCGTGGGGGTACGATTCTTGGGACATCACGAGGGGGGCATGATACTGGCAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttaccatgtgtcagctgtattataatgaagtttctgatgatgatgaatgcgggaatcataaattagagttttgttatatccatgtacttaaaacctaagtaggttattgtcatcgcatgggttttcattgcttgggttatggttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA